{"id":"https://openalex.org/W2160479957","doi":"https://doi.org/10.1371/journal.pcbi.1003726","title":"A Novel Nutritional Predictor Links Microbial Fastidiousness with Lowered Ubiquity, Growth Rate, and Cooperativeness","display_name":"A Novel Nutritional Predictor Links Microbial Fastidiousness with Lowered Ubiquity, Growth Rate, and Cooperativeness","publication_year":2014,"publication_date":"2014-07-17","ids":{"openalex":"https://openalex.org/W2160479957","doi":"https://doi.org/10.1371/journal.pcbi.1003726","mag":"2160479957"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1003726","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1003726","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1003726&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1003726&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5077184904","display_name":"Raphy Zarecki","orcid":"https://orcid.org/0000-0002-8567-2425"},"institutions":[{"id":"https://openalex.org/I16391192","display_name":"Tel Aviv University","ror":"https://ror.org/04mhzgx49","country_code":"IL","type":"education","lineage":["https://openalex.org/I16391192"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"Raphy Zarecki","raw_affiliation_strings":["School of Computer Sciences & Sackler School of Medicine, Tel Aviv University, Tel Aviv, Israel"],"affiliations":[{"raw_affiliation_string":"School of Computer Sciences & Sackler School of Medicine, Tel Aviv University, Tel Aviv, Israel","institution_ids":["https://openalex.org/I16391192"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5028671382","display_name":"Matthew Oberhardt","orcid":"https://orcid.org/0000-0001-6491-6315"},"institutions":[{"id":"https://openalex.org/I16391192","display_name":"Tel Aviv University","ror":"https://ror.org/04mhzgx49","country_code":"IL","type":"education","lineage":["https://openalex.org/I16391192"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"Matthew A. Oberhardt","raw_affiliation_strings":["Department of Molecular Microbiology and Biotechnology, Faculty of Life Sciences, Tel Aviv University, Tel Aviv, Israel","School of Computer Sciences & Sackler School of Medicine, Tel Aviv University, Tel Aviv, Israel"],"affiliations":[{"raw_affiliation_string":"Department of Molecular Microbiology and Biotechnology, Faculty of Life Sciences, Tel Aviv University, Tel Aviv, Israel","institution_ids":["https://openalex.org/I16391192"]},{"raw_affiliation_string":"School of Computer Sciences & Sackler School of Medicine, Tel Aviv University, Tel Aviv, Israel","institution_ids":["https://openalex.org/I16391192"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112908506","display_name":"Leah Reshef","orcid":null},"institutions":[{"id":"https://openalex.org/I16391192","display_name":"Tel Aviv University","ror":"https://ror.org/04mhzgx49","country_code":"IL","type":"education","lineage":["https://openalex.org/I16391192"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"Leah Reshef","raw_affiliation_strings":["Department of Molecular Microbiology and Biotechnology, Faculty of Life Sciences, Tel Aviv University, Tel Aviv, Israel"],"affiliations":[{"raw_affiliation_string":"Department of Molecular Microbiology and Biotechnology, Faculty of Life Sciences, Tel Aviv University, Tel Aviv, Israel","institution_ids":["https://openalex.org/I16391192"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015777117","display_name":"Uri Gophna","orcid":"https://orcid.org/0000-0001-5129-5652"},"institutions":[{"id":"https://openalex.org/I16391192","display_name":"Tel Aviv University","ror":"https://ror.org/04mhzgx49","country_code":"IL","type":"education","lineage":["https://openalex.org/I16391192"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"Uri Gophna","raw_affiliation_strings":["Department of Molecular Microbiology and Biotechnology, Faculty of Life Sciences, Tel Aviv University, Tel Aviv, Israel"],"affiliations":[{"raw_affiliation_string":"Department of Molecular Microbiology and Biotechnology, Faculty of Life Sciences, Tel Aviv University, Tel Aviv, Israel","institution_ids":["https://openalex.org/I16391192"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5063492133","display_name":"Eytan Ruppin","orcid":"https://orcid.org/0000-0002-7862-3940"},"institutions":[{"id":"https://openalex.org/I16391192","display_name":"Tel Aviv University","ror":"https://ror.org/04mhzgx49","country_code":"IL","type":"education","lineage":["https://openalex.org/I16391192"]}],"countries":["IL"],"is_corresponding":true,"raw_author_name":"Eytan Ruppin","raw_affiliation_strings":["School of Computer Sciences & Sackler School of Medicine, Tel Aviv University, Tel Aviv, Israel"],"affiliations":[{"raw_affiliation_string":"School of Computer Sciences & Sackler School of Medicine, Tel Aviv University, Tel Aviv, Israel","institution_ids":["https://openalex.org/I16391192"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5063492133"],"corresponding_institution_ids":["https://openalex.org/I16391192"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":1.1408,"has_fulltext":true,"cited_by_count":39,"citation_normalized_percentile":{"value":0.78089793,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"10","issue":"7","first_page":"e1003726","last_page":"e1003726"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9916999936103821,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.991100013256073,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/fastidious-organism","display_name":"Fastidious organism","score":0.9418689608573914},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.7911489009857178},{"id":"https://openalex.org/keywords/ecological-niche","display_name":"Ecological niche","score":0.7662627100944519},{"id":"https://openalex.org/keywords/adaptation","display_name":"Adaptation (eye)","score":0.5936320424079895},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.5880287885665894},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.3983232378959656},{"id":"https://openalex.org/keywords/bacteria","display_name":"Bacteria","score":0.13732978701591492},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.13587439060211182}],"concepts":[{"id":"https://openalex.org/C149453125","wikidata":"https://www.wikidata.org/wiki/Q5437094","display_name":"Fastidious organism","level":3,"score":0.9418689608573914},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7911489009857178},{"id":"https://openalex.org/C102715595","wikidata":"https://www.wikidata.org/wiki/Q172861","display_name":"Ecological niche","level":3,"score":0.7662627100944519},{"id":"https://openalex.org/C139807058","wikidata":"https://www.wikidata.org/wiki/Q352374","display_name":"Adaptation (eye)","level":2,"score":0.5936320424079895},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.5880287885665894},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.3983232378959656},{"id":"https://openalex.org/C523546767","wikidata":"https://www.wikidata.org/wiki/Q10876","display_name":"Bacteria","level":2,"score":0.13732978701591492},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.13587439060211182},{"id":"https://openalex.org/C185933670","wikidata":"https://www.wikidata.org/wiki/Q52105","display_name":"Habitat","level":2,"score":0.0},{"id":"https://openalex.org/C169760540","wikidata":"https://www.wikidata.org/wiki/Q207011","display_name":"Neuroscience","level":1,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1371/journal.pcbi.1003726","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1003726","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1003726&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},{"id":"pmh:oai:doaj.org/article:7d125b760dfc40e690569bf17ba0f18f","is_oa":true,"landing_page_url":"https://doaj.org/article/7d125b760dfc40e690569bf17ba0f18f","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 10, Iss 7, p e1003726 (2014)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:3074078","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4102436","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:figshare.com:article/1108991","is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/_A_Novel_Nutritional_Predictor_Links_Microbial_Fastidiousness_with_Lowered_Ubiquity_Growth_Rate_and_Cooperativeness_/1108991","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Dataset"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1003726","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1003726","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1003726&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.7200000286102295,"display_name":"Zero hunger","id":"https://metadata.un.org/sdg/2"}],"awards":[{"id":"https://openalex.org/G1699706384","display_name":null,"funder_award_id":"I-CORE","funder_id":"https://openalex.org/F4320322252","funder_display_name":"Israel Science Foundation"},{"id":"https://openalex.org/G1885850273","display_name":null,"funder_award_id":"Scholar","funder_id":"https://openalex.org/F4320306183","funder_display_name":"James S. McDonnell Foundation"},{"id":"https://openalex.org/G3656338551","display_name":null,"funder_award_id":"Fellowship","funder_id":"https://openalex.org/F4320306183","funder_display_name":"James S. McDonnell Foundation"},{"id":"https://openalex.org/G4791905715","display_name":null,"funder_award_id":"41/11","funder_id":"https://openalex.org/F4320335016","funder_display_name":"Israeli Centers for Research Excellence"},{"id":"https://openalex.org/G6967680648","display_name":null,"funder_award_id":"41/11","funder_id":"https://openalex.org/F4320322252","funder_display_name":"Israel Science Foundation"},{"id":"https://openalex.org/G7988834133","display_name":null,"funder_award_id":"41/11","funder_id":"https://openalex.org/F4320335375","funder_display_name":"Planning and Budgeting Committee of the Council for Higher Education of Israel"}],"funders":[{"id":"https://openalex.org/F4320306183","display_name":"James S. McDonnell Foundation","ror":"https://ror.org/03dy4aq19"},{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320322252","display_name":"Israel Science Foundation","ror":"https://ror.org/04sazxf24"},{"id":"https://openalex.org/F4320335016","display_name":"Israeli Centers for Research Excellence","ror":"https://ror.org/03w2v9593"},{"id":"https://openalex.org/F4320335375","display_name":"Planning and Budgeting Committee of the Council for Higher Education of Israel","ror":null}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2160479957.pdf","grobid_xml":"https://content.openalex.org/works/W2160479957.grobid-xml"},"referenced_works_count":39,"referenced_works":["https://openalex.org/W116396253","https://openalex.org/W1858789088","https://openalex.org/W1984164743","https://openalex.org/W1984602113","https://openalex.org/W1988925586","https://openalex.org/W1990507322","https://openalex.org/W2000935322","https://openalex.org/W2001447987","https://openalex.org/W2002574233","https://openalex.org/W2024704006","https://openalex.org/W2043102924","https://openalex.org/W2044151730","https://openalex.org/W2048519269","https://openalex.org/W2063475537","https://openalex.org/W2072013780","https://openalex.org/W2075200843","https://openalex.org/W2076393137","https://openalex.org/W2079094106","https://openalex.org/W2098824895","https://openalex.org/W2100084634","https://openalex.org/W2106806321","https://openalex.org/W2108959333","https://openalex.org/W2117760818","https://openalex.org/W2119575032","https://openalex.org/W2120167281","https://openalex.org/W2132377217","https://openalex.org/W2152549251","https://openalex.org/W2156812113","https://openalex.org/W2160870047","https://openalex.org/W2161580117","https://openalex.org/W2162237022","https://openalex.org/W2163240970","https://openalex.org/W2167046694","https://openalex.org/W2167194504","https://openalex.org/W2168244801","https://openalex.org/W2169991570","https://openalex.org/W2170027074","https://openalex.org/W2170427655","https://openalex.org/W6639241109"],"related_works":["https://openalex.org/W4249472805","https://openalex.org/W2911415750","https://openalex.org/W2996625647","https://openalex.org/W1992334911","https://openalex.org/W2803290727","https://openalex.org/W2529314810","https://openalex.org/W1996083730","https://openalex.org/W2081071692","https://openalex.org/W2072361287","https://openalex.org/W4226048902"],"abstract_inverted_index":{"Understanding":[0],"microbial":[1,29,77,165],"nutritional":[2,46,58,83],"requirements":[3,47,59],"is":[4,97],"a":[5,26,168],"key":[6],"challenge":[7],"in":[8,182],"microbiology.":[9],"Here":[10],"we":[11,34],"leverage":[12],"the":[13,42,132,178],"recent":[14],"availability":[15],"of":[16,18,28,38,76,134,180],"thousands":[17,37],"automatically":[19],"generated":[20],"genome-scale":[21],"metabolic":[22,105],"models":[23],"to":[24,36,40,90,119,137],"develop":[25],"predictor":[27],"minimal":[30],"medium":[31],"requirements,":[32],"which":[33],"apply":[35],"species":[39,64,111,123,149],"study":[41],"relationship":[43],"between":[44],"their":[45,49],"and":[48,51,81,103,107,115],"ecological":[50,68,152],"genomic":[52],"traits.":[53],"We":[54,70],"first":[55],"show":[56],"that":[57,65,176],"are":[60],"more":[61,86,92,109,113,125],"similar":[62],"among":[63],"co-habit":[66],"many":[67,151],"niches.":[69],"then":[71],"reveal":[72],"three":[73],"fundamental":[74],"characteristics":[75],"fastidiousness":[78,96],"(i.e.,":[79],"complex":[80],"specific":[82],"requirements):":[84],"(1)":[85],"fastidious":[87,110,135],"microorganisms":[88,136,181],"tend":[89],"be":[91],"ecologically":[93],"limited;":[94],"(2)":[95],"positively":[98],"associated":[99],"with":[100,121,140,154],"smaller":[101,104],"genomes":[102],"networks;":[106],"(3)":[108],"grow":[112],"slowly":[114],"have":[116],"less":[117],"ability":[118],"cooperate":[120],"other":[122],"than":[124],"metabolically":[126],"versatile":[127],"organisms.":[128],"These":[129],"associations":[130,175],"reflect":[131],"adaptation":[133],"unique":[138],"niches":[139,153],"few":[141],"cohabitating":[142],"species.":[143],"They":[144],"also":[145],"explain":[146],"how":[147],"non-fastidious":[148],"inhabit":[150],"high":[155],"abundance":[156],"rates.":[157],"Taken":[158],"together,":[159],"these":[160],"results":[161],"advance":[162],"our":[163],"understanding":[164],"nutrition":[166],"on":[167],"large":[169],"scale,":[170],"by":[171],"presenting":[172],"new":[173],"nutrition-related":[174],"govern":[177],"distribution":[179],"nature.":[183]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":5},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":6},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":6},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":3}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2016-06-24T00:00:00"}
